Genome sequencing has revealed that bacteria contain many more biosynthetic gene clusters than predicted based on the number of secondary metabolites discovered to date. While this biosynthetic reservoir has fostered interest in new tools for natural product discovery, there remains a gap between gene cluster detection and compound discovery. In this paper, we apply molecular networking and the new concept of pattern-based genome mining to 35 Salinispora strains, including 30 for which draft genome sequences were either available or obtained for this study. The results provide a method to simultaneously compare large numbers of complex microbial extracts, which facilitated themore » identification of media components, known compounds and their derivatives, and new compounds that could be prioritized for structure elucidation. Finally, these efforts revealed considerable metabolite diversity and led to several molecular family-gene cluster pairings, of which the quinomycin-type depsipeptide retimycin A was characterized and linked to gene cluster NRPS40 using pattern-based bioinformatic approaches.« less

Shale gas and hydraulic refracturing has revolutionized the US energy sector in terms of prices, consumption, and CO 2 emissions. However, key questions remain including environmental concerns and extraction efficiencies that are leveling off. For the first time, we identify key discoveries, lessons learned, and recommendations from this shale gas revolution through extensive data mining and analysis of 23 years of production from 20,000 wells. Discoveries include identification of a learning-by-doing process where disruptive technology innovation led to a doubling in shale gas extraction, how refracturing with emerging technologies can transform existing wells, and how overall shale gas production ismore » actually dominated by long-term tail production rather than the high-profile initial exponentially-declining production in the first 12 months. We hypothesize that tail production can be manipulated, through better fracturing techniques and alternative working fluids such as CO 2, to increase shale gas recovery and minimize environmental impacts such as through carbon sequestration.« less

Imore » mmunoglobulin genes are generated during differentiation of B lymphocytes by joining gene segments. A mouse pre-B cell contains a functional immunoglobulin heavy-chain gene, but no light-chain gene. Although there is only one heavy-chain locus, there are two lightchain loci: κ and λ .t has been reported that κ loci in the germ-line configuration are never (in man) or very rarely (in the mouse) present in cells with functionally rearranged λ -chain genes. Two explanations have been proposed to explain this: (a) the ordered rearrangement theory, which postulates that light-chain gene rearrangement in the pre-B cell is first attempted at the κ locus, and that only upon failure to produce a functional κ chain is there an attempt to rearrange the λ locus; and (b) the stochastic theory, which postulates that rearrangement at the λ locus proceeds at a rate that is intrinsically much slower than that at the κ locus. We show here that λ -chain genes are generated whether or not the κ locus has lost its germ-line arrangement, a result that is compatible only with the stochastic theory.« less